Journal article
Evolutionary History of Copper Membrane Monooxygenases
Frontiers in microbiology, Vol.9, pp.2493-2493
10/29/2018
Handle:
https://hdl.handle.net/2376/115604
PMCID: PMC6215863
PMID: 30420840
Abstract
Copper membrane monooxygenases (CuMMOs) oxidize ammonia, methane and some short-chain alkanes and alkenes. They are encoded by three genes, usually in an operon of
xmoCAB
. We aligned
xmo
operons from 66 microbial genomes, including members of the
Alpha
-,
Beta
-, and
Gamma-proteobacteria, Verrucomicrobia, Actinobacteria, Thaumarchaeota
and the candidate phylum NC10. Phylogenetic and compositional analyses were used to reconstruct the evolutionary history of the enzyme and detect potential lateral gene transfer (LGT) events. The phylogenetic analyses showed at least 10 clusters corresponding to a combination of substrate specificity and bacterial taxonomy, but with no overriding structure based on either function or taxonomy alone. Adaptation of the enzyme to preferentially oxidize either ammonia or methane has occurred more than once. Individual phylogenies of all three genes,
xmoA, xmoB
and
xmoC
, closely matched, indicating that this operon evolved or was consistently transferred as a unit, with the possible exception of the methane monooxygenase operons in
Verrucomicrobia
, where the
pmoB
gene has a distinct phylogeny from
pmoA
and
pmoC
. Compositional analyses indicated that some clusters of
xmoCAB
operons (for example, the
pmoCAB
in gammaproteobacterial methanotrophs and the
amoCAB
in betaproteobacterial nitrifiers) were compositionally very different from their genomes, possibly indicating recent lateral transfer of these operons. The combined phylogenetic and compositional analyses support the hypothesis that an ancestor of the nitrifying bacterium
Nitrosococcus
was the donor of methane monooxygenase (pMMO) to both the alphaproteobacterial and gammaproteobacterial methanotrophs, but that before this event the gammaproteobacterial methanotrophs originally possessed another CuMMO (Pxm), which has since been lost in many species.
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Details
- Title
- Evolutionary History of Copper Membrane Monooxygenases
- Creators
- Roshan Khadka - Department of Biological Sciences, University of CalgaryLindsay Clothier - Department of Biological Sciences, University of CalgaryLin Wang - Department of Biological Sciences, University of North Carolina at CharlotteChee Kent Lim - Department of Biological Sciences, University of North Carolina at CharlotteMartin G Klotz - School of Molecular Biosciences, College of Veterinary Medicine, Washington State UniversityPeter F Dunfield - Department of Biological Sciences, University of Calgary
- Publication Details
- Frontiers in microbiology, Vol.9, pp.2493-2493
- Academic Unit
- Integrative Physiology and Neuroscience, Department of; Molecular Biosciences, School of
- Publisher
- Frontiers Media S.A
- Grant note
- Natural Sciences and Engineering Research Council of Canada
- Identifiers
- 99900547702001842
- Language
- English
- Resource Type
- Journal article